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Ok, so how could I read the matrix?, if I just have the .nii

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From: John Ashburner <[log in to unmask]>
Sent: Tuesday, September 25, 2018 11:18:39 AM
To: [log in to unmask]
Cc: SPM
Subject: Re: [SPM] question about normalization
 
This is because the image orientation and position is stored as a matrix in the header, which maps from each voxel index to some real world location in mm.  If you simply read the image data, then you are probably ignoring this matrix.

Best regards,
-John


On Mon, 24 Sep 2018 at 20:07, Corita martínez <[log in to unmask]> wrote:
Hi there,

I am doing orientation in SMP in 1.5708 radians in pitch, this rotation works in the view, but when I read it with matlab code it does not have a change. 

Do you know why is it?

Kind regards,
Lupita
De: SPM (Statistical Parametric Mapping) <[log in to unmask]> en nombre de John Ashburner <[log in to unmask]>
Enviado: martes, 11 de septiembre de 2018 02:55 p. m.
Para: [log in to unmask]
Asunto: Re: [SPM] question about normalization
 
It's a tissue probability map (spm12/tpm/TPM.nii).  You should also be able to normalise EPI images using the same tissue probability map.

Best regards,
-John


On Tue, 11 Sep 2018 at 19:49, Hans van der Horn <[log in to unmask]> wrote:
Dear all,

Does anyone know what MNI template is used in spm12 for normalization? is it a T1 template, and is it also possible to normalize to an EPI template?

thanks for your help,

yours sincerely,

Hans van der Horn


--
Prof John Ashburner
Professor of Imaging Science
UCL Institute of Neurology
Queen Square
Wellcome Trust Centre for Neuroimaging
University College London
12 Queen Square, London, WC1N 3BG
E: [log in to unmask]  T: +44 (0)20 3448 4365
http://www.fil.ion.ucl.ac.uk/


--
Prof John Ashburner
Professor of Imaging Science
UCL Institute of Neurology
Queen Square
Wellcome Trust Centre for Neuroimaging
University College London
12 Queen Square, London, WC1N 3BG
E: [log in to unmask]  T: +44 (0)20 3448 4365
http://www.fil.ion.ucl.ac.uk/